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The Railroad moved their base of operations to the catacombs under the Old North Church after their old headquarters at The Switchboard was raided by The Institute and they were forced to flee the complex through an escape tunnel. Many of their operatives and members died or fled and the Railroad was almost disbanded. The entrance is hidden and can only be opened by following the "freedom trail," solving the puzzle and inputting the solution using the rotating wheel at the hidden door. The crypts may be dark, but they offer protection from attacks and prying eyes, and allow the Railroad to keep functioning.

After the Sole Survivor joins the Railroad, they are allowed free rein in the HQ. There is big circular table in the middle of the chamber where Desdemona usually lingers. Left of the entrance is Dr. Carrington's area with medical supplies and a treatment bed. In the far right is Tinker Tom's corner with research equipment, a terminal and a firing range. On the other side of the circular table is a rest area where Drummer Boy and Glory can be found (Deacon will also be here if the Sole Survivor chose not to take him as a follower). On the right side is P.A.M.'s chamber with large computers.

It is revealed there is another exit from the crypts to the side of the rest area, which also serves as an escape tunnel, and leads directly to the surface north of the church, to a ruined building with a chained up door.

ps4pc It is possible to become stuck when standing on the white round table in the middle of the main room.[verification overdue]

pc In the later missions, it's possible for the main door to close without being able to be opened again.[verification overdue]

pc If power armor is docked in the power armor station it might become corrupted, this will cause pieces of the power armor to go missing and it will be impossible to exit the power armor whilst in the HQ. [verification overdue]

xboxone There is a bug whereby Railroad missions will suddenly fail, and upon returning to Railroad HQ, they will all turn hostile.[verification overdue]